RNA id: TCONS_00044781


Basic Information

Item Value
RNA id TCONS_00044781
length 2044
lncRNA type sense_over
GC content 0.49
exon number 4
gene id XLOC_021479
representative False

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 8787995 ~ 8811654 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

cctctctttctgtcCCAACATATCTCTCGATCTTATCAGGTCCCGTCACGGCGGCCCGCAGGAACATCCCTGTCTTCCTGTTTCTggaggtgaacacacacacatacacacacacagactgtgaGAATGTCCAGTGGGGAATGTGGAGCAGACAGCCAGGCGAAGACCACTGTCACGTAGCCAACTTTCACCATCTAGAAGAGGGAGAGACTGAGCTTCCCGTCCAAATGGCCCACGCAACATTTACCGCGCGTCGGCCTCTATCAGACTGTTATGGAGCAAAGGAAAGATTGTTGAatttgttcatccacaagatggcaaaaGAGACCACATAATAAACCCCTAGAGGAGGAAAAGCCCAgcataattttaaactacagtttattaaatcattattaaacagGAAGTGTGGCCCCTACTATACCCCTACTCTTCCTCTGCTGGACAGGAAGTAGCGCTGCCTCCTCTTCCTGTGTAAGAAGCAGGACGCGGCTCATATGTAAGGACCAATCAAGACAATTATTGGGATGGATCTCGAACCACACACACCACCGCTGGAGCTTTCAGATCGGCTGCTGGCGCCTGAGCTTTCCAAGCGGCAGACATCGTCTGTACTTCCCGATCAGCCCCAGCAGCCTGAGCTTCCCGATTAGCCGCCGCCAGAATTCCCTGAAAGGCAGGTACCAGATCCTCCAAAATTCCTCAATGACAGGTGCCTGATCTCCTAGAAAACCCCACATGGCAAAAGCTGGATCTTTTGGAATTCCTTAAGTGACAGGCGGCAAAGTCTCCAGACCAGTACCATCTCCAGAGTGCCCCAAATGGCCAGTGCCGTCCAAAGATATCCCCAAACAGCTGGAGCCATCCCCCTAGTTTCCTAAATGGCCAGAGCTGTCCCCAGAGTTCCCCGAACAGCTGGAGCCATCCCCAAAGATCCCCAAACGGCCAGAGCCATCCCCTGAGTTCGCCAAACGGCTGGAGCTGACCCGAGAGTTCCCCAAACGGCTGGAGCTGACCCTGGAGTTCCCCAAACGGCTGGAGCTTTCTCTTGAGTTCTGCTAACAACCAGAGTCGTCTCTTGAGTACCCCTAACGGTTGGAGCTGTCTCTTGAGTTCCCTTAATGACAACAGCCGTCTTATCAGAGTGTCCTACCTCACATCaaaaaatggaaagcaaattttGATGACAAAACATGCTACCCctcagattttgctaccagtgtaaattttaatgtggatAAGTGATTAATAttgccctaacctacctaatccctaaccccaacctcaaaaccattcaaatacagtgttggtagcataatctgatgggtaggataaaatgtcagttCACCACCTTGAGTTCCCCTAATGGCTGCAGCCGTGTCTTGAGTTCCGACCTTGAGTTACCCTAATGGCCGCAGCCATCTCTTGAGTTCCCCTAAAGGCTGGAGCTGTCTCTTGAGTTCCCCTAGCAGCTAGAGCCATCTTTTGAGTTCCCCAAATTAGTTCTATAGAACTAATACAGTGCCCCCACCTCCTGCAACCTACTATCAACTACACCATGTGAAGATAATCATGGAAGAACCCGGCACCAGGTTAGAGCATCAGGAGCCGCCTCCTGTAGGAGGGGATAATGTCACAGTCAGAAGCCAATCAGCCTCGCACCTGCACTTGCACTTCACACAGTTCACCTGATTTAGTATCAACACCTGCACACAGACACAGGTTAAAAAAGCATCTCCATTCACTCTGTCTATCCTGAAACTCACAACCCGAGTGTTCATCCAATCCATTTCCAGCGATTCTACTACTCCAGCATCTCAGTTTCTCCTTCCAGCATCTCCCCTACTACAGTGTCTGAGTATTACCTTCCACTGTTTCTCCTGCTCCAGCGTATCAGTGTTTCCTATGTTCTATGTTGAACTGGATTCCCTCAATGTGTGTAGTGTGTCTGCAACGAACTCGAACTTTTGCTCCACAAACTCAATTAAGAATATTATTACCTTTGTTGTAATAAACTGTGTTGATTTCCCCTATACCTTTGTCC

Function

GO:

id name namespace
GO:0048729 tissue morphogenesis biological_process
GO:0021532 neural tube patterning biological_process
GO:0035239 tube morphogenesis biological_process
GO:0002009 morphogenesis of an epithelium biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0001756 somitogenesis biological_process
GO:0043009 chordate embryonic development biological_process
GO:0035270 endocrine system development biological_process
GO:0030154 cell differentiation biological_process
GO:0048513 animal organ development biological_process
GO:0035282 segmentation biological_process
GO:0035295 tube development biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0009888 tissue development biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0060429 epithelium development biological_process
GO:1901861 regulation of muscle tissue development biological_process
GO:0048568 embryonic organ development biological_process
GO:0045198 establishment of epithelial cell apical/basal polarity biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0021903 rostrocaudal neural tube patterning biological_process
GO:0021906 hindbrain-spinal cord boundary formation biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0016202 regulation of striated muscle tissue development biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0021915 neural tube development biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0048869 cellular developmental process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0009948 anterior/posterior axis specification biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0048634 regulation of muscle organ development biological_process
GO:0048641 regulation of skeletal muscle tissue development biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0061053 somite development biological_process
GO:0061061 muscle structure development biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0030903 notochord development biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00042690 lncRNA upstream 88002 8687571 ~ 8699993 (+) True XLOC_021478
TCONS_00044780 lncRNA upstream 1352679 7405267 ~ 7435316 (+) False XLOC_021472
TCONS_00042680 lncRNA upstream 1379548 7405546 ~ 7408447 (+) True XLOC_021472
TCONS_00044778 lncRNA upstream 1379661 7402807 ~ 7408334 (+) False XLOC_021472
TCONS_00044779 lncRNA upstream 1379661 7402808 ~ 7408334 (+) False XLOC_021472
TCONS_00044782 lncRNA downstream 585091 9396668 ~ 9403617 (+) True XLOC_021490
TCONS_00044658 lncRNA downstream 1054124 9865701 ~ 9865938 (+) True XLOC_021495
TCONS_00044783 lncRNA downstream 1126668 9938245 ~ 9952826 (+) False XLOC_021497
TCONS_00044785 lncRNA downstream 1126697 9938274 ~ 9952826 (+) False XLOC_021497
TCONS_00044784 lncRNA downstream 1126697 9938274 ~ 9952826 (+) True XLOC_021497
TCONS_00042689 mRNA upstream 88318 8679216 ~ 8699677 (+) False XLOC_021478
TCONS_00042686 mRNA upstream 1051276 7710447 ~ 7736719 (+) False XLOC_021477
TCONS_00042687 mRNA upstream 1055253 7710721 ~ 7732742 (+) False XLOC_021477
TCONS_00042688 mRNA upstream 1059348 7710732 ~ 7728647 (+) True XLOC_021477
TCONS_00042685 mRNA upstream 1078861 7692042 ~ 7709134 (+) True XLOC_021476
TCONS_00042692 mRNA downstream 177591 8989168 ~ 9015026 (+) True XLOC_021481
TCONS_00042693 mRNA downstream 224001 9035578 ~ 9054948 (+) True XLOC_021482
TCONS_00042694 mRNA downstream 246422 9057999 ~ 9084866 (+) False XLOC_021483
TCONS_00042695 mRNA downstream 255554 9067131 ~ 9076161 (+) True XLOC_021483
TCONS_00042696 mRNA downstream 276614 9088191 ~ 9137648 (+) True XLOC_021484
TCONS_00042675 other upstream 1962193 6825688 ~ 6825802 (+) True XLOC_021466
TCONS_00042666 other upstream 2483721 6277175 ~ 6304274 (+) True XLOC_021459
TCONS_00042596 other upstream 5052986 3721041 ~ 3735009 (+) False XLOC_021425
TCONS_00042520 other upstream 8345643 442237 ~ 442352 (+) True XLOC_021384
TCONS_00042519 other upstream 8375336 412542 ~ 412659 (+) True XLOC_021383
TCONS_00042706 other downstream 495997 9307574 ~ 9308561 (+) True XLOC_021488
TCONS_00042716 other downstream 806636 9618213 ~ 9618335 (+) True XLOC_021493
TCONS_00042717 other downstream 915833 9727410 ~ 9727432 (+) True XLOC_021494
TCONS_00042720 other downstream 1334975 10146552 ~ 10158901 (+) False XLOC_021498
TCONS_00042723 other downstream 1536300 10347877 ~ 10350429 (+) False XLOC_021499

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000021_04191779_04194388.mRNA True 490 mRNA 0.54 3 CI01000021 4191606 ~ 4194399 (-)